python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_0/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_0.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_100/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_100.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_101/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_101.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_102/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_102.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_103/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_103.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_104/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_104.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_105/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_105.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_106/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_106.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_107/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_107.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_108/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_108.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_109/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_109.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_10/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_10.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_110/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_110.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_111/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_111.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_112/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_112.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_113/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_113.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_114/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_114.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_115/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_115.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_116/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_116.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_117/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_117.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_118/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_118.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_119/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_119.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_11/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_11.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_120/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_120.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_121/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_121.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_122/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_122.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_123/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_123.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_124/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_124.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_125/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_125.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_126/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_126.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_127/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_127.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_128/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_128.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_129/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_129.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_12/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_12.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_130/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_130.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_131/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_131.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_132/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_132.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_133/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_133.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_134/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_134.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_135/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_135.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_136/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_136.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_137/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_137.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_138/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_138.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_139/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_139.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_13/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_13.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_140/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_140.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_141/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_141.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_142/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_142.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_143/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_143.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_144/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_144.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_145/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_145.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_146/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_146.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_147/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_147.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_148/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_148.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_149/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_149.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_14/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_14.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_150/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_150.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_151/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_151.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_152/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_152.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_153/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_153.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_154/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_154.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_155/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_155.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_156/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_156.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_157/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_157.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_158/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_158.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_159/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_159.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_15/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_15.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_160/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_160.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_161/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_161.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_162/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_162.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_163/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_163.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_164/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_164.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_165/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_165.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_166/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_166.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_167/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_167.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_168/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_168.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_169/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_169.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_16/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_16.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_170/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_170.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_171/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_171.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_172/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_172.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_173/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_173.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_174/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_174.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_175/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_175.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_176/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_176.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_177/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_177.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_178/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_178.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_179/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_179.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_17/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_17.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_180/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_180.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_181/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_181.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_182/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_182.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_183/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_183.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_184/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_184.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_185/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_185.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_186/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_186.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_187/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_187.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_188/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_188.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_189/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_189.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_18/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_18.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_190/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_190.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_191/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_191.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_192/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_192.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_193/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_193.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_194/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_194.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_195/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_195.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_196/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_196.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_197/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_197.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_198/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_198.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_199/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_199.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_19/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_19.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_1/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_1.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_200/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_200.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_201/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_201.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_202/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_202.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_203/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_203.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_204/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_204.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_205/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_205.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_206/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_206.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_207/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_207.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_208/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_208.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_209/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_209.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_20/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_20.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_210/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_210.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_211/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_211.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_212/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_212.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_213/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_213.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_214/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_214.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_215/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_215.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_216/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_216.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_217/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_217.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_218/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_218.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_219/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_219.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_21/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_21.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_220/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_220.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_221/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_221.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_222/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_222.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_223/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_223.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_224/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_224.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_225/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_225.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_226/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_226.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_227/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_227.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_228/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_228.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_229/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_229.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_22/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_22.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_230/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_230.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_231/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_231.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_232/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_232.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_233/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_233.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_234/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_234.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_235/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_235.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_236/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_236.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_237/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_237.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_238/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_238.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_239/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_239.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_23/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_23.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_240/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_240.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_241/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_241.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_242/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_242.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_243/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_243.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_244/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_244.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_245/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_245.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_246/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_246.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_247/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_247.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_248/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_248.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_249/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_249.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_24/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_24.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_250/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_250.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_251/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_251.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_252/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_252.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_253/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_253.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_254/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_254.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_255/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_255.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_256/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_256.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_257/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_257.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_258/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_258.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_259/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_259.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_25/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_25.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_260/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_260.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_261/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_261.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_262/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_262.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_263/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_263.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_264/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_264.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_265/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_265.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_266/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_266.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_267/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_267.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_268/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_268.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_269/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_269.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_26/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_26.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_270/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_270.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_271/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_271.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_272/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_272.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_273/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_273.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_274/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_274.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_275/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_275.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_276/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_276.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_277/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_277.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_278/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_278.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_279/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_279.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_27/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_27.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_280/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_280.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_281/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_281.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_282/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_282.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_283/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_283.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_284/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_284.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_285/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_285.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_286/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_286.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_287/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_287.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_288/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_288.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_289/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_289.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_28/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_28.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_290/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_290.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_291/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_291.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_292/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_292.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_293/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_293.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_294/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_294.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_295/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_295.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_296/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_296.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_297/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_297.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_298/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_298.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_299/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_299.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_29/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_29.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_2/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_2.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_300/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_300.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_301/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_301.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_302/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_302.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_303/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_303.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_304/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_304.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_305/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_305.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_306/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_306.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_307/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_307.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_308/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_308.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_309/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_309.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_30/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_30.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_310/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_310.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_311/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_311.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_312/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_312.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_313/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_313.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_314/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_314.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_315/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_315.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_316/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_316.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_317/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_317.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_318/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_318.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_319/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_319.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_31/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_31.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_320/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_320.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_321/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_321.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_322/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_322.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_323/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_323.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_324/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_324.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_325/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_325.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_326/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_326.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_327/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_327.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_328/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_328.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_329/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_329.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_32/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_32.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_330/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_330.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_331/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_331.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_332/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_332.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_333/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_333.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_334/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_334.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_335/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_335.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_336/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_336.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_337/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_337.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_338/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_338.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_339/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_339.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_33/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_33.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_340/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_340.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_341/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_341.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_342/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_342.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_343/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_343.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_344/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_344.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_345/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_345.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_346/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_346.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_347/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_347.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_348/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_348.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_349/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_349.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_34/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_34.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_350/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_350.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_351/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_351.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_352/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_352.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_353/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_353.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_354/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_354.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_355/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_355.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_356/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_356.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_357/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_357.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_358/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_358.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_359/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_359.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_35/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_35.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_360/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_360.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_361/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_361.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_362/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_362.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_363/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_363.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_364/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_364.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_365/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_365.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_366/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_366.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_367/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_367.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_368/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_368.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_369/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_369.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_36/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_36.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_370/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_370.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_371/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_371.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_372/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_372.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_373/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_373.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_374/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_374.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_375/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_375.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_376/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_376.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_377/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_377.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_378/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_378.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_379/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_379.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_37/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_37.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_380/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_380.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_381/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_381.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_382/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_382.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_383/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_383.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_384/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_384.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_385/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_385.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_386/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_386.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_387/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_387.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_388/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_388.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_389/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_389.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_38/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_38.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_390/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_390.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_391/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_391.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_392/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_392.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_393/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_393.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_39/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_39.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_3/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_3.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_40/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_40.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_41/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_41.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_42/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_42.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_43/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_43.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_44/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_44.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_45/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_45.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_46/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_46.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_47/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_47.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_48/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_48.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_49/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_49.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_4/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_4.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_50/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_50.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_51/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_51.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_52/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_52.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_53/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_53.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_54/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_54.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_55/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_55.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_56/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_56.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_57/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_57.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_58/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_58.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_59/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_59.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_5/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_5.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_60/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_60.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_61/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_61.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_62/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_62.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_63/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_63.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_64/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_64.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_65/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_65.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_66/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_66.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_67/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_67.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_68/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_68.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_69/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_69.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_6/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_6.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_70/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_70.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_71/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_71.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_72/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_72.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_73/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_73.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_74/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_74.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_75/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_75.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_76/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_76.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_77/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_77.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_78/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_78.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_79/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_79.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_7/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_7.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_80/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_80.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_81/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_81.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_82/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_82.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_83/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_83.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_84/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_84.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_85/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_85.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_86/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_86.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_87/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_87.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_88/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_88.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_89/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_89.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_8/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_8.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_90/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_90.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_91/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_91.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_92/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_92.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_93/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_93.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_94/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_94.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_95/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_95.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_96/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_96.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_97/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_97.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_98/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_98.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_99/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_99.m6A -m6A-only -excludeContext CG 1 &
python /oak/stanford/groups/akundaje/marinovg/code/bisulfite/TomboSingleReadsExtract-tombo_de_novo-1.5.py single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_9/tombo.alternative.mods.per_read.6mA.tombo.per_read_stats /oak/stanford/groups/akundaje/marinovg/genomes/hg38/sequence/hg38-no-haps.fa single_fast5-output-FAK54415_68d5e59ec708dddf149f3d6a6409b0b6d150de56_9.m6A -m6A-only -excludeContext CG 1 &